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油菜（L.）基因家族的全基因组鉴定和特征分析。

Genome-Wide Identification and Characterization of the Gene Family in Rapeseed ( L.).

机构信息

College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China.

Academy of Agricultural Sciences, Southwest University, Beibei, Chongqing 400715, China.

出版信息

Int J Mol Sci. 2024 May 13;25(10):5301. doi: 10.3390/ijms25105301.

DOI:10.3390/ijms25105301
PMID:38791340
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11121423/
Abstract

The gene family is present in plants and is involved in biological processes such as flowering, circadian rhythm regulation, plant growth and development, and stress resistance. We identified 87, 62, 46, and 40 at the whole-genome level in , , , and , respectively. The can be classified into five groups based on evolutionary relationships, and each of these groups can be further subdivided into three subfamilies (, and ) based on function. Our analysis of chromosome localization, gene structure, collinearity, cis-acting elements, and expression patterns in revealed that the distribution of the 87 on the chromosomes of was uneven. Analysis of gene structure and conserved motifs revealed that, with the exception of a few genes that may have lost structural domains, the majority of genes within the same group exhibited similar structures and conserved domains. The gene collinearity analysis identified 72 orthologous genes, indicating gene duplication and expansion during the evolution of . Analysis of cis-acting elements identified several elements related to abiotic and biotic stress, plant hormone response, and plant growth and development in the promoter regions of . Expression pattern and protein interaction network analysis showed that are differentially expressed in various tissues and under stress conditions. The subfamily genes have the highest number of interacting proteins, indicating their significant role in the growth, development, and response to abiotic stress of .

摘要

该基因家族存在于植物中，参与开花、昼夜节律调节、植物生长发育和抗逆性等生物学过程。我们在、、、和中分别在全基因组水平上鉴定到 87、62、46 和 40 个。可以根据进化关系将分为 5 组，每组根据功能进一步细分为 3 个亚家族（、和）。我们对 87 个在 中的染色体定位、基因结构、共线性、顺式作用元件和表达模式的分析表明，87 个在 的染色体上的分布不均匀。基因结构和保守基序分析表明，除了少数可能失去结构域的基因外，同一组内的大多数基因表现出相似的结构和保守基序。基因共线性分析鉴定出 72 个直系同源基因，表明在 的进化过程中发生了基因复制和扩张。顺式作用元件分析鉴定出启动子区域中与非生物和生物胁迫、植物激素响应以及植物生长和发育相关的几个元件。表达模式和蛋白质相互作用网络分析表明，在不同组织和胁迫条件下的表达模式存在差异。亚家族基因具有最多数量的相互作用蛋白，表明它们在的生长、发育和对非生物胁迫的响应中具有重要作用。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/291c/11121423/a71fadbebe8c/ijms-25-05301-g012.jpg
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